CmoCh05G012520 (gene) Cucurbita moschata (Rifu) | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CmoCh05G012520
Type	gene
Organism	Cucurbita moschata (Cucurbita moschata (Rifu))
Description	sigma factor binding protein 1
Location	Cmo_Chr05 : 9722390 .. 9722779 (+)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: exonCDS

Hold the cursor over a type above to highlight its positions in the sequence below.

ATGGGGAAGTGTGGAGAGAATGAATGGAAGGACCAAAAGCAGAGTCAAAATCCCACAAAAGTTCAAAGAAAACCCATAAAAGTAAAGTACATTTCAAGCCCAATGATGATCAAAGCAAGCAATGCACATGAGTTCAGAGCCATTGTTCAGCAACTCACTGGCTTCACCTCCAATTCTCCCACTCGCCGGAGCAACCACAAACCACCGCCCCACGCCGCCCAAACTCCATCCACTTCAACGTTGCATGCAAATCCTCAAATGGAAGCCTTGAAGTTGTCGGACAACATGTCGTCGCTCCTCGAGTTTGATGATGAAGCTTGTTTTGTAACACTTGATAATGTTCTCACCAACAACTTCATGGGATTTCAAGCTTCTTGCTTGTTTCAATAG

mRNA sequence

ATGGGGAAGTGTGGAGAGAATGAATGGAAGGACCAAAAGCAGAGTCAAAATCCCACAAAAGTTCAAAGAAAACCCATAAAAGTAAAGTACATTTCAAGCCCAATGATGATCAAAGCAAGCAATGCACATGAGTTCAGAGCCATTGTTCAGCAACTCACTGGCTTCACCTCCAATTCTCCCACTCGCCGGAGCAACCACAAACCACCGCCCCACGCCGCCCAAACTCCATCCACTTCAACGTTGCATGCAAATCCTCAAATGGAAGCCTTGAAGTTGTCGGACAACATGTCGTCGCTCCTCGAGTTTGATGATGAAGCTTGTTTTGTAACACTTGATAATGTTCTCACCAACAACTTCATGGGATTTCAAGCTTCTTGCTTGTTTCAATAG

Coding sequence (CDS)

ATGGGGAAGTGTGGAGAGAATGAATGGAAGGACCAAAAGCAGAGTCAAAATCCCACAAAAGTTCAAAGAAAACCCATAAAAGTAAAGTACATTTCAAGCCCAATGATGATCAAAGCAAGCAATGCACATGAGTTCAGAGCCATTGTTCAGCAACTCACTGGCTTCACCTCCAATTCTCCCACTCGCCGGAGCAACCACAAACCACCGCCCCACGCCGCCCAAACTCCATCCACTTCAACGTTGCATGCAAATCCTCAAATGGAAGCCTTGAAGTTGTCGGACAACATGTCGTCGCTCCTCGAGTTTGATGATGAAGCTTGTTTTGTAACACTTGATAATGTTCTCACCAACAACTTCATGGGATTTCAAGCTTCTTGCTTGTTTCAATAG

Homology

[Close]

BLAST of CmoCh05G012520 vs. TrEMBL
Match: A0A0A0LIA7_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_2G010150 PE=4 SV=1)

HSP 1 Score: 146.7 bits (369), Expect = 1.9e-32
Identity = 86/139 (61.87%), Postives = 99/139 (71.22%), Query Frame = 1


Query: 1   MGKCGENEW------KDQKQSQNPTKVQRKPIKVKYISSPMMIKASNAHEFRAIVQQLTG 60
           MGKCGEN++      + Q Q+QNPTKVQRKPIKVKYISSPMMIKASNA EFRAIVQQLTG
Sbjct: 1   MGKCGENQYTNHNHSQSQSQNQNPTKVQRKPIKVKYISSPMMIKASNALEFRAIVQQLTG 60

Query: 61  FTSNSPTRRSNHKPPPHAAQTPSTSTLHANPQMEALKLSD--NMSSLLEFDDEACFVTL- 120
           F SN+PTRR N K     A+TPS        +ME LK SD  +M SLL+FD + CF T  
Sbjct: 61  FDSNTPTRRRNQKLLSDCARTPSAMFHADRHEMEVLKFSDDHHMESLLQFDGQGCFETQN 120

Query: 121 -DNVLTNNFMGFQASCLFQ 130
            +N+L NN M FQ+SC FQ
Sbjct: 121 NNNILPNNIMEFQSSCFFQ 139

[Close]

BLAST of CmoCh05G012520 vs. TrEMBL
Match: A0A061F1R9_THECC (Uncharacterized protein OS=Theobroma cacao GN=TCM_026260 PE=4 SV=1)

HSP 1 Score: 63.2 bits (152), Expect = 2.7e-07
Identity = 30/44 (68.18%), Postives = 37/44 (84.09%), Query Frame = 1


Query: 14 QSQNPTKVQRKPIKVKYISSPMMIKASNAHEFRAIVQQLTGFTS 58
          +S+NPTK ++ PIK+KYISSP M+ ASNA EFRAIVQ+LTG  S
Sbjct: 11 ESKNPTKAKKIPIKIKYISSPKMVNASNADEFRAIVQELTGRNS 54

[Close]

BLAST of CmoCh05G012520 vs. TrEMBL
Match: B9MUD7_POPTR (Uncharacterized protein OS=Populus trichocarpa GN=POPTR_0001s01240g PE=4 SV=1)

HSP 1 Score: 60.5 bits (145), Expect = 1.8e-06
Identity = 26/45 (57.78%), Postives = 39/45 (86.67%), Query Frame = 1


Query: 10 KDQKQSQNPTKVQRKPIKVKYISSPMMIKASNAHEFRAIVQQLTG 55
          ++ ++ +NPTK +++P+K+ YISSPMM+KA+NA EFR IVQ+LTG
Sbjct: 12 QEPRRGKNPTKHRKEPVKITYISSPMMVKATNASEFRVIVQELTG 56

[Close]

BLAST of CmoCh05G012520 vs. TrEMBL
Match: A0A0D2U3H7_GOSRA (Uncharacterized protein OS=Gossypium raimondii GN=B456_013G186400 PE=4 SV=1)

HSP 1 Score: 60.5 bits (145), Expect = 1.8e-06
Identity = 45/115 (39.13%), Postives = 65/115 (56.52%), Query Frame = 1


Query: 14  QSQNPTKVQRKPIKVKYISSPMMIKASNAHEFRAIVQQLTGFTSNSPTRRSNHKPPPHAA 73
           +S+ P K+   P+KVKYISSPMM+KASNA EFRAIVQ+LTG       + S+   P +  
Sbjct: 11  KSKKPKKI---PVKVKYISSPMMVKASNAEEFRAIVQELTG-------QHSDMGEPVNVV 70

Query: 74  QTPSTSTLHANPQMEALKLSDNMSSLLEFDDEACFVTLDNVLTNNFMGFQASCLF 129
            T + + L     ++A    D+MSS+  FD+   +      +  N  GFQ+  +F
Sbjct: 71  TTNTKAKLDDRNWLDA--YPDDMSSMELFDEGFVW----RGVAENLFGFQSPSVF 109

[Close]

BLAST of CmoCh05G012520 vs. TrEMBL
Match: A0A067DJ56_CITSI (Uncharacterized protein OS=Citrus sinensis GN=CISIN_1g031928mg PE=4 SV=1)

HSP 1 Score: 60.1 bits (144), Expect = 2.3e-06
Identity = 38/85 (44.71%), Postives = 50/85 (58.82%), Query Frame = 1


Query: 1  MGKCG---ENEWKDQKQSQNPTKVQRKPIKVKYISSPMMIKASNAHEFRAIVQQLTGFTS 60
          MGK G   +++  ++ Q     KV++ P+KV YISSPM +KASNA EFRAIVQ+LTG  S
Sbjct: 1  MGKFGHHFDHQGHNKSQRSGANKVKKNPLKVTYISSPMKVKASNASEFRAIVQELTGKNS 60

Query: 61 NSPTRRSNHKPPPHAAQTPSTSTLH 83
                S+    PHA +    S  H
Sbjct: 61 EVKDHNSDDVVFPHAEEAKVFSHNH 85

[Close]

BLAST of CmoCh05G012520 vs. NCBI nr
Match: gi|700205660|gb|KGN60779.1| (hypothetical protein Csa_2G010150 [Cucumis sativus])

HSP 1 Score: 146.7 bits (369), Expect = 2.7e-32
Identity = 86/139 (61.87%), Postives = 99/139 (71.22%), Query Frame = 1


Query: 1   MGKCGENEW------KDQKQSQNPTKVQRKPIKVKYISSPMMIKASNAHEFRAIVQQLTG 60
           MGKCGEN++      + Q Q+QNPTKVQRKPIKVKYISSPMMIKASNA EFRAIVQQLTG
Sbjct: 1   MGKCGENQYTNHNHSQSQSQNQNPTKVQRKPIKVKYISSPMMIKASNALEFRAIVQQLTG 60

Query: 61  FTSNSPTRRSNHKPPPHAAQTPSTSTLHANPQMEALKLSD--NMSSLLEFDDEACFVTL- 120
           F SN+PTRR N K     A+TPS        +ME LK SD  +M SLL+FD + CF T  
Sbjct: 61  FDSNTPTRRRNQKLLSDCARTPSAMFHADRHEMEVLKFSDDHHMESLLQFDGQGCFETQN 120

Query: 121 -DNVLTNNFMGFQASCLFQ 130
            +N+L NN M FQ+SC FQ
Sbjct: 121 NNNILPNNIMEFQSSCFFQ 139

[Close]

BLAST of CmoCh05G012520 vs. NCBI nr
Match: gi|590642352|ref|XP_007030494.1| (Uncharacterized protein TCM_026260 [Theobroma cacao])

HSP 1 Score: 63.2 bits (152), Expect = 3.9e-07
Identity = 30/44 (68.18%), Postives = 37/44 (84.09%), Query Frame = 1


Query: 14 QSQNPTKVQRKPIKVKYISSPMMIKASNAHEFRAIVQQLTGFTS 58
          +S+NPTK ++ PIK+KYISSP M+ ASNA EFRAIVQ+LTG  S
Sbjct: 11 ESKNPTKAKKIPIKIKYISSPKMVNASNADEFRAIVQELTGRNS 54

[Close]

BLAST of CmoCh05G012520 vs. NCBI nr
Match: gi|823261712|ref|XP_012463594.1| (PREDICTED: uncharacterized protein LOC105782992 [Gossypium raimondii])

HSP 1 Score: 60.5 bits (145), Expect = 2.6e-06
Identity = 45/115 (39.13%), Postives = 65/115 (56.52%), Query Frame = 1


Query: 14  QSQNPTKVQRKPIKVKYISSPMMIKASNAHEFRAIVQQLTGFTSNSPTRRSNHKPPPHAA 73
           +S+ P K+   P+KVKYISSPMM+KASNA EFRAIVQ+LTG       + S+   P +  
Sbjct: 11  KSKKPKKI---PVKVKYISSPMMVKASNAEEFRAIVQELTG-------QHSDMGEPVNVV 70

Query: 74  QTPSTSTLHANPQMEALKLSDNMSSLLEFDDEACFVTLDNVLTNNFMGFQASCLF 129
            T + + L     ++A    D+MSS+  FD+   +      +  N  GFQ+  +F
Sbjct: 71  TTNTKAKLDDRNWLDA--YPDDMSSMELFDEGFVW----RGVAENLFGFQSPSVF 109

[Close]

BLAST of CmoCh05G012520 vs. NCBI nr
Match: gi|566146535|ref|XP_006368281.1| (hypothetical protein POPTR_0001s01240g [Populus trichocarpa])

HSP 1 Score: 60.5 bits (145), Expect = 2.6e-06
Identity = 26/45 (57.78%), Postives = 39/45 (86.67%), Query Frame = 1


Query: 10 KDQKQSQNPTKVQRKPIKVKYISSPMMIKASNAHEFRAIVQQLTG 55
          ++ ++ +NPTK +++P+K+ YISSPMM+KA+NA EFR IVQ+LTG
Sbjct: 12 QEPRRGKNPTKHRKEPVKITYISSPMMVKATNASEFRVIVQELTG 56

[Close]

BLAST of CmoCh05G012520 vs. NCBI nr
Match: gi|641823493|gb|KDO42898.1| (hypothetical protein CISIN_1g031928mg [Citrus sinensis])

HSP 1 Score: 60.1 bits (144), Expect = 3.3e-06
Identity = 38/85 (44.71%), Postives = 50/85 (58.82%), Query Frame = 1


Query: 1  MGKCG---ENEWKDQKQSQNPTKVQRKPIKVKYISSPMMIKASNAHEFRAIVQQLTGFTS 60
          MGK G   +++  ++ Q     KV++ P+KV YISSPM +KASNA EFRAIVQ+LTG  S
Sbjct: 1  MGKFGHHFDHQGHNKSQRSGANKVKKNPLKVTYISSPMKVKASNASEFRAIVQELTGKNS 60

Query: 61 NSPTRRSNHKPPPHAAQTPSTSTLH 83
                S+    PHA +    S  H
Sbjct: 61 EVKDHNSDDVVFPHAEEAKVFSHNH 85

The following BLAST results are available for this feature:

BLAST of CmoCh05G012520 vs. Swiss-Prot


Match Name	E-value	Identity	Description

BLAST of CmoCh05G012520 vs. TrEMBL


Match Name	E-value	Identity	Description
A0A0A0LIA7_CUCSA	1.9e-32	61.87	Uncharacterized protein OS=Cucumis sativus GN=Csa_2G010150 PE=4 SV=1	[more]
A0A061F1R9_THECC	2.7e-07	68.18	Uncharacterized protein OS=Theobroma cacao GN=TCM_026260 PE=4 SV=1	[more]
B9MUD7_POPTR	1.8e-06	57.78	Uncharacterized protein OS=Populus trichocarpa GN=POPTR_0001s01240g PE=4 SV=1	[more]
A0A0D2U3H7_GOSRA	1.8e-06	39.13	Uncharacterized protein OS=Gossypium raimondii GN=B456_013G186400 PE=4 SV=1	[more]
A0A067DJ56_CITSI	2.3e-06	44.71	Uncharacterized protein OS=Citrus sinensis GN=CISIN_1g031928mg PE=4 SV=1	[more]

BLAST of CmoCh05G012520 vs. TAIR10


Match Name	E-value	Identity	Description

BLAST of CmoCh05G012520 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|700205660\|gb\|KGN60779.1\|	2.7e-32	61.87	hypothetical protein Csa_2G010150 [Cucumis sativus]	[more]
gi\|590642352\|ref\|XP_007030494.1\|	3.9e-07	68.18	Uncharacterized protein TCM_026260 [Theobroma cacao]	[more]
gi\|823261712\|ref\|XP_012463594.1\|	2.6e-06	39.13	PREDICTED: uncharacterized protein LOC105782992 [Gossypium raimondii]	[more]
gi\|566146535\|ref\|XP_006368281.1\|	2.6e-06	57.78	hypothetical protein POPTR_0001s01240g [Populus trichocarpa]	[more]
gi\|641823493\|gb\|KDO42898.1\|	3.3e-06	44.71	hypothetical protein CISIN_1g031928mg [Citrus sinensis]	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition
IPR008889	VQ

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0008150	biological_process
cellular_component	GO:0005575	cellular_component
molecular_function	GO:0003674	molecular_function

Relationships

The following mRNA feature(s) are a part of this gene:


Feature Name	Unique Name	Type
CmoCh05G012520.1	CmoCh05G012520.1	mRNA

InterPro

Analysis Name: InterPro Annotations of Cucurbita moschata
Date Performed: 2017-05-19


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR008889	VQ	PFAM	PF05678	VQ	coord: 31..58 score: 1.
None	No IPR available	PANTHER	PTHR33624	FAMILY NOT NAMED	coord: 10..104 score: 1.8
None	No IPR available	PANTHER	PTHR33624:SF3	SUBFAMILY NOT NAMED	coord: 10..104 score: 1.8

Synteny

The following gene(s) are orthologous to this gene:


Gene	Orthologue	Organism	Block
CmoCh05G012520	Cucsa.133030	Cucumber (Gy14) v1	cgycmoB0362
CmoCh05G012520	CmaCh05G012240	Cucurbita maxima (Rimu)	cmacmoB787
CmoCh05G012520	Cla013631	Watermelon (97103) v1	cmowmB757
CmoCh05G012520	Csa2G010150	Cucumber (Chinese Long) v2	cmocuB783
CmoCh05G012520	MELO3C004409	Melon (DHL92) v3.5.1	cmomeB724
CmoCh05G012520	ClCG02G016910	Watermelon (Charleston Gray)	cmowcgB700
CmoCh05G012520	CSPI02G02690	Wild cucumber (PI 183967)	cmocpiB787
CmoCh05G012520	Lsi11G004170	Bottle gourd (USVL1VR-Ls)	cmolsiB706
CmoCh05G012520	Cp4.1LG11g10000	Cucurbita pepo (Zucchini)	cmocpeB721
CmoCh05G012520	MELO3C004408.2	Melon (DHL92) v3.6.1	cmomedB821
CmoCh05G012520	CsaV3_2G003860	Cucumber (Chinese Long) v3	cmocucB0924
CmoCh05G012520	Cla97C02G042640	Watermelon (97103) v2	cmowmbB785
CmoCh05G012520	CsGy2G002790	Cucumber (Gy14) v2	cgybcmoB243

The following gene(s) are paralogous to this gene:

None

The following block(s) are covering this gene:


Gene	Organism	Block
CmoCh05G012520	Silver-seed gourd	carcmoB0357
CmoCh05G012520	Silver-seed gourd	carcmoB1442
CmoCh05G012520	Wax gourd	cmowgoB0919
CmoCh05G012520	Cucurbita moschata (Rifu)	cmocmoB148
CmoCh05G012520	Cucurbita maxima (Rimu)	cmacmoB190
CmoCh05G012520	Cucurbita pepo (Zucchini)	cmocpeB742